Publications de l'équipe MaBioVis pour l'année 2012

Années: 2005, 2006, 2007, 2008, 2009, 2010, 2011, 2013

  1. A. Lambert. Visualisation interactive de graphes : élaboration et optimisation d'algorithmes à coûts computationnels élevés. PhD thesis, Université Sciences et Technologies - Bordeaux I, 2012.
  2. R. Assar, F. Vargas, and D. J. Sherman. Reconciling competing models: a case study of wine fermentation kinetics. In K. Horimoto, M. Nakatsui, and N. Popov, editors, Algebraic and Numeric Biology 2010, volume 6479 of Lecture Notes in Computer Science, pages 68-83. Springer, 2012.
  3. M. Nadal and G. Melançon. Dessin de graphe assisté par un algorithme génétique. In A. Etien, editor, 9ème édition de la conférence MAnifestation des JEunes Chercheurs en Sciences et Technologies de l'Information et de la Communication - MajecSTIC 2012 (2012), 2012.
  4. P. Thebault. A multi-objective heuristic integrating biological data for flux analysis in metabolic networks. In Open Source Software for Systems, Pathways, Interactions and Networks (SPIN-OSS) retreat being held at the Wellcome Trust Genome Campus, EBI, 2012.
  5. A. Lambert and D. Auber. Graph analysis and visualization with tulip-python. In EuroSciPy 2012 - 5th European meeting on Python in Science, 2012.
  6. A. Lambert, F. Queyroi, and R. Bourqui. Visualizing patterns in node-link diagrams. In 16th International Conference on Information Visualisation (IV'12), pages 48-53, 2012.
  7. J. Dubois, L. Cottret, A. Ghozlane, D. Auber, F. Bringaud, P. Thebault, F. Jourdan, and R. Bourqui. Systrip: a visual environment for the investigation of time-series data in the context of metabolic networks. In 16th International Conference on Information Visualization (IV'12), page 4771a204, 2012.
  8. T. Martin and P. Durrens. Feedback in the management of genomic data in the gdr génolevures. In ICY2012 13th International Congress on Yeasts, 2012.
  9. T. Martin and P. Durrens. Génolevures : Politique d'annotation automatique des génomes de levures (yaga). In 10e rencontre Levures Modèles & Outils, 2012.
  10. L. Bourgeade, T. Martin, A. Goulielmakis, A. Lonvaud-Funel, P. Lucas, and E. Bon. Cracking the pseudome code: Inside the "silent" psi-genes language to reconstruct oenococcus oeni evolutionary adaptation to wine. In U. C. VetAgroSup, editor, 18th CBL-Club des Bactéries Lactiques Meeting, 2012.
  11. L. Bourgeade, T. Martin, and E. Bon. Pseudoe: A computational method to detect psi-genes and explore pseudome dynamics in wine bacteria from the oenococcus genus. In D. T. François Cost, editor, JOBIM2012- 13ème Journées Ouvertes en Biologie, Informatique et Mathématiques, pages 435-436. SFBI, INRIA, 2012.
  12. A. Ghozlane, J. Dubois, I. Dutour, R. Bourqui, M. Breton, and P. Thebault. irna: Integrative pipeline for genome-wide detection of srna targets. In "Autour des ARNs non codant" - Rencontre bioinformatique 2012, 2012.
  13. R. Assar, M. A. Montecino, and D. J. Sherman. Stochastic modeling of complex systems and systems biology: From stochastic transition systems to hybrid systems. In XII Latin American Congress of Probability and Mathematical Statistics, 2012.
  14. F. Zaidi and G. Melançon. Topological decomposition and heuristics for high speed clustering of complex networks. In Hermann, editor, Extraction et Gestion de Connaissance, 2012, volume RNTI-E-23, pages 447-458, 2012.
  15. F. Queyroi. Validation et optimisation d'une décomposition hiérarchique de graphes. In 12e Conférence Internationale Francophone sur l'Extraction et la Gestion des Connaissances, 2012.
  16. A. Benzakour, S. Maabout, M. Mosbah, and M. Sistiaga. Uncertainty interval temporal sequences extraction. In 6th Int. Conf. on Information Systems, Technology and Management (ICISTM), number 285 in Com. Comp. Info. Science (CCIS), pages 259-270. Springer, 2012.
  17. A. Gouliemakis, J. Bridier, A. Barré, O. Claisse, D. Sherman, P. Durrens, A. Lonvaud-Funel, and E. Bon. How does oenococcus oeni adapt to its environment? a pangenomic oligonucleotide microarray for analysis o. oeni gene expression under wine shock. In P. Univ. Bordeaux Segalen (Darriet, L. Geny, P. Lucas, A. Lonvaud, G. de Revel, and . P. L. Teissedre, editors, OENO2011- 9th International Symposium of Oenology, pages 358-363. Dunod, Paris, 2012.
  18. A. Benzakour, S. Maabout, M. Mosbah, and M. Sistiaga. Extraction de séquences fréquentes avec intervalles d'incertitude. In Conférence Internationale Francophone sur l'Extraction et la Gestion de Connaissance (EGC), RNTI (Revue des nouvelles technologies de l'information), page 12 pages. Hermann, 2012.
  19. E. Garnaud, S. Maabout, and M. Mosbah. Using functional dependencies for reducing the size of a data cube. In Springer, editor, International Symposium on Foundations of Information and Knowledge Systems, LNCS 7153, pages 145-164, 2012.
  20. G. Sacomoto, J. Kielbassa, R. Chikhi, R. Uricaru, P. Antoniou, M.-F. Sagot, P. Peterlongo, and V. Lacroix. Kissplice: de-novo calling alternative splicing events from rna-seq data. BMC Bioinformatics, 13(Suppl 6), 2012.
  21. N. Loira, T. Dulermo, J.-M. Nicaud, and D. Sherman. A genome-scale metabolic model of the lipid-accumulating yeast yarrowia lipolytica. BMC Systems Biology, 6(1):35, 2012.
  22. V. Dupuy, L. Manso-Silván, V. Barbe, P. Thebault, E. Dordet-Frisoni, C. Citti, F. Poumarat, A. Blanchard, M. Breton, P. Sirand-Pugnet, and F. Thiaucourt. Evolutionary history of contagious bovine pleuropneumonia using next generation sequencing of mycoplasma mycoides subsp. mycoides "small colony". PLoS ONE, 7(10), 2012.
  23. A. Zhukova, R. Adams, C. Laibe, and N. Le Novère. Libkisao: a java library for querying kisao. BMC Research Notes, 5:520, 2012.
  24. A. Ghozlane, F. Bringaud, H. Soueidan, I. Dutour, F. Jourdan, and P. Thebault. Flux analysis of the trypanosoma brucei glycolysis based on a multi-objective criteria bioinformatic approach, advances in bioinfromatics, 2012, in press. international conference with published acts. Advances in Bioinformatics, 2012:16 pages, Article ID 159423, 2012.
  25. F. El Gharniti, M. Dols-Lafargue, E. Bon, O. Claisse, C. Miot-Sertier, A. Lonvaud-Funel, and C. Le Marrec. Is30 elements are mediators of genetic diversity in oenococcus oeni. International Journal of Food Microbiology, 158(1):14-22, 2012.
  26. G. Sacomoto, J. Kielbassa, R. Chikhi, R. Uricaru, P. Antoniou, M.-F. Sagot, P. Peterlongo, and V. Lacroix. Kissplice: de-novo calling alternative splicing events from rna-seq data. BMC Bioinformatics, 13:1-12, 2012.
  27. F. Tardy, E. Baranowski, L.-X. Nouvel, V. Mick, L. Manso-Silvàn, F. Thiaucourt, P. Thébault, M. Breton, P. Sirand-Pugnet, A. Blanchard, A. Garnier, P. Gibert, Y. Game, F. Poumarat, and C. Citti. Emergence of atypical mycoplasma agalactiae strains harbouring a new prophage and associated with a mortality episode of alpine wild-ungulates. Appl Environ Microbiol, 2012.
  28. S.-A. Sansone, P. Rocca-Serra, D. Field, E. Maguire, C. Taylor, O. Hofmann, H. Fang, S. Neumann, W. Tong, L. Amaral-Zettler, K. Begley, T. Booth, L. Bougueleret, G. Burns, B. Chapman, T. Clark, L.-A. Coleman, J. Copeland, S. Das, A. De Daruvar, P. De Matos, I. Dix, S. Edmunds, C. T. Evelo, M. J. Forster, P. Gaudet, J. Gilbert, C. Goble, J. L. Griffin, D. Jacob, J. Kleinjans, L. Harland, K. Haug, H. Hermjakob, S. J. Ho Sui, A. Laederach, S. Liang, S. Marshall, A. Mcgrath, E. Merrill, D. Reilly, M. Roux, C. E. Shamu, C. A. Shang, C. Steinbeck, A. Trefethen, B. Williams-Jones, K. Wolstencroft, I. Xenarios, and W. Hide. Toward interoperable bioscience data. Nature Genetics, 44(2):121-6, 2012.
  29. B. Pinaud, G. Melançon, and J. Dubois. Porgy: A visual graph rewriting environment for complex systems. Computer Graphics Forum, 31(3):1265-1274, 2012.
  30. R. Assar, A. V. Leisewitz, A. Garcia, N. C. Inestrosa, M. A. Montecino, and D. J. Sherman. Reusing and composing models of cell fate regulation of human bone precursor cells. BioSystems, 108(1-3):63-72, 2012.
  31. E. Garnaud, S. Maabout, and M. Mosbah. Les dépendances fonctionnelles pour la sélection de vues dans les cubes de données. Journal of Decision Systems, 21(1):71-91, 2012.
  32. J. Allali, C. Saule, C. Chauve, Y. D'Aubenton-Carafa, A. Denise, C. Drevet, P. Ferraro, D. Gautheret, C. Herrbach, F. Leclerc, A. De Monte, A. Ouangraoua, M.-F. Sagot, M. Termier, C. Thermes, and H. Touzet. Brasero: A resource for benchmarking rna secondary structure comparison algorithms. Advances in Bioinformatics, 2012(893048):5 pages, 2012.

Années: 2005, 2006, 2007, 2008, 2009, 2010, 2011, 2013

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